Fig. 3.

Correction of the T. gondii genome assembly by Hi-C data. (A) Normalized interchromosomal contact-count heat map plotted using the current version of the T. gondii genome showing unusually high levels of contact counts between chrVIIb and chrVIII (inside the red box). (B) Normalized interchromosomal contact-count heat map plotted using an updated version of the T. gondii genome in which chrVIIb and chrVIII have been stitched to form one large chrVIII. All interchromosomal contacts are at expected levels and the newly formed chromosome shows a single centromeric interaction with each other chromosome. (C) The intrachromosomal contact-count heat map of the newly formed chromosome chrVIII, showing no discrepancies in contact counts along the chromosome or at the junction. (D) Misassembly metric for the newly formed chrVIII, showing no signs of misassembly. The junction is indicated with a dashed line.